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Nathaniel Glassy 5 months ago
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commit
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38 changed files with 5214 additions and 0 deletions
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Subject 16/sub-16_T1w.json

@@ -0,0 +1,57 @@
+{
+	"Modality": "MR",
+	"MagneticFieldStrength": 1.5,
+	"ImagingFrequency": 63.8999,
+	"Manufacturer": "Philips",
+	"ManufacturersModelName": "Achieva",
+	"InstitutionName": "UCSF IMR",
+	"InstitutionalDepartmentName": "Radiology",
+	"DeviceSerialNumber": "08042",
+	"StationName": "PHILIPS-60C6AA9",
+	"BodyPartExamined": "OPTIC CANAL",
+	"PatientPosition": "HFS",
+	"ProcedureStepDescription": "MSI",
+	"SoftwareVersions": "2.6.3\\2.6.3.3",
+	"MRAcquisitionType": "3D",
+	"SeriesDescription": "MP-RAGE MSI",
+	"ProtocolName": "MP-RAGE MSI CLEAR",
+	"ScanningSequence": "GR",
+	"SequenceVariant": "MP",
+	"ScanOptions": "OTHER",
+	"ImageType": ["ORIGINAL", "PRIMARY", "M", "FFE", "M", "FFE"],
+	"SeriesNumber": 301,
+	"AcquisitionTime": "16:21:44.070000",
+	"AcquisitionNumber": 3,
+	"PhilipsRescaleSlope": 7.21026,
+	"PhilipsRescaleIntercept": 0,
+	"PhilipsScaleSlope": 0.000215876,
+	"UsePhilipsFloatNotDisplayScaling": 0,
+	"SliceThickness": 1.5,
+	"SpacingBetweenSlices": 1.5,
+	"SAR": 0.0919834,
+	"EchoTime": 0.0037833,
+	"RepetitionTime": 0.007797,
+	"FlipAngle": 8,
+	"CoilString": "SENSE-Head-6",
+	"PercentPhaseFOV": 75,
+	"PercentSampling": 100,
+	"EchoTrainLength": 192,
+	"PhaseEncodingSteps": 256,
+	"AcquisitionMatrixPE": 256,
+	"ReconMatrixPE": 256,
+	"WaterFatShift": 1.13462,
+	"EstimatedEffectiveEchoSpacing": 2.03739e-05,
+	"EstimatedTotalReadoutTime": 0.00519534,
+	"PixelBandwidth": 191.483,
+	"PhaseEncodingAxis": "i",
+	"ImageOrientationPatientDICOM": [
+		0.988107,
+		0.153769,
+		0,
+		-0.153769,
+		0.988107,
+		0	],
+	"InPlanePhaseEncodingDirectionDICOM": "ROW",
+	"ConversionSoftware": "dcm2niix",
+	"ConversionSoftwareVersion": "v1.0.20210317"
+}

+ 1 - 0
Subject 16/sub-16_T1w.nii

@@ -0,0 +1 @@
+/annex/objects/MD5-s18350432--25882df040ec3994ea4d10fe4b3e3999

BIN
Subject 16/sub-16_task-arrow_run-1.ds/BadChannels


+ 26 - 0
Subject 16/sub-16_task-arrow_run-1.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/working/research_meg13/leighton/lizraw/raw/sub-16_task-arrow_run-1.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

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+ 1569 - 0
Subject 16/sub-16_task-arrow_run-1.ds/MarkerFile.mrk


BIN
Subject 16/sub-16_task-arrow_run-1.ds/bad.segments


+ 32 - 0
Subject 16/sub-16_task-arrow_run-1.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 04-Jan-2021 10:47
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 16/sub-16_task-arrow_run-1.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 10:47  04/01/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	0,4,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

BIN
Subject 16/sub-16_task-arrow_run-1.ds/sub-16_task-arrow_run-1.acq


+ 37 - 0
Subject 16/sub-16_task-arrow_run-1.ds/sub-16_task-arrow_run-1.hc

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+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 5.78639
+	y = 5.29303
+	z = -28.4966
+measured left ear coil position relative to dewar (cm):
+	x = -5.29497
+	y = 4.44082
+	z = -29.1272
+measured right ear coil position relative to dewar (cm):
+	x = 3.97379
+	y = -6.46145
+	z = -30.0684
+measured nasion coil position relative to head (cm):
+	x = 9.08342
+	y = 0
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.550553
+	y = 7.14917
+	z = 0
+measured right ear coil position relative to head (cm):
+	x = -0.550553
+	y = -7.14917
+	z = -3.55271e-15
+

BIN
Subject 16/sub-16_task-arrow_run-1.ds/sub-16_task-arrow_run-1.infods


+ 1 - 0
Subject 16/sub-16_task-arrow_run-1.ds/sub-16_task-arrow_run-1.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1917840008--0bd5a0f43e6106cd1efb7f170e8fe547

+ 17 - 0
Subject 16/sub-16_task-arrow_run-1.ds/sub-16_task-arrow_run-1.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 16/sub-16_task-arrow_run-1.ds/sub-16_task-arrow_run-1.res4


BIN
Subject 16/sub-16_task-arrow_run-2.ds/BadChannels


+ 26 - 0
Subject 16/sub-16_task-arrow_run-2.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/working/research_meg13/leighton/lizraw/raw/sub-16_task-arrow_run-2.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

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+ 1560 - 0
Subject 16/sub-16_task-arrow_run-2.ds/MarkerFile.mrk


BIN
Subject 16/sub-16_task-arrow_run-2.ds/bad.segments


+ 32 - 0
Subject 16/sub-16_task-arrow_run-2.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 04-Jan-2021 10:54
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 16/sub-16_task-arrow_run-2.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 10:54  04/01/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	0,4,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

BIN
Subject 16/sub-16_task-arrow_run-2.ds/sub-16_task-arrow_run-2.acq


+ 37 - 0
Subject 16/sub-16_task-arrow_run-2.ds/sub-16_task-arrow_run-2.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 5.76136
+	y = 5.27629
+	z = -28.5385
+measured left ear coil position relative to dewar (cm):
+	x = -5.35358
+	y = 4.41741
+	z = -29.1841
+measured right ear coil position relative to dewar (cm):
+	x = 3.98104
+	y = -6.50236
+	z = -30.0286
+measured nasion coil position relative to head (cm):
+	x = 9.0906
+	y = 4.44089e-16
+	z = 3.55271e-15
+measured left ear coil position relative to head (cm):
+	x = 0.534345
+	y = 7.17543
+	z = 0
+measured right ear coil position relative to head (cm):
+	x = -0.534345
+	y = -7.17543
+	z = 7.10543e-15
+

BIN
Subject 16/sub-16_task-arrow_run-2.ds/sub-16_task-arrow_run-2.infods


+ 1 - 0
Subject 16/sub-16_task-arrow_run-2.ds/sub-16_task-arrow_run-2.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1983720008--9d0032b845c0998387ff0e6e1e22e937

+ 17 - 0
Subject 16/sub-16_task-arrow_run-2.ds/sub-16_task-arrow_run-2.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 16/sub-16_task-arrow_run-2.ds/sub-16_task-arrow_run-2.res4


BIN
Subject 16/sub-16_task-arrow_run-3.ds/BadChannels


+ 26 - 0
Subject 16/sub-16_task-arrow_run-3.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/working/research_meg13/leighton/lizraw/raw/sub-16_task-arrow_run-3.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

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+ 1589 - 0
Subject 16/sub-16_task-arrow_run-3.ds/MarkerFile.mrk


BIN
Subject 16/sub-16_task-arrow_run-3.ds/bad.segments


+ 32 - 0
Subject 16/sub-16_task-arrow_run-3.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 04-Jan-2021 10:55
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 16/sub-16_task-arrow_run-3.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 10:55  04/01/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	0,4,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

BIN
Subject 16/sub-16_task-arrow_run-3.ds/sub-16_task-arrow_run-3.acq


+ 37 - 0
Subject 16/sub-16_task-arrow_run-3.ds/sub-16_task-arrow_run-3.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 5.63832
+	y = 5.28962
+	z = -28.8041
+measured left ear coil position relative to dewar (cm):
+	x = -5.46949
+	y = 4.40138
+	z = -29.2761
+measured right ear coil position relative to dewar (cm):
+	x = 3.95486
+	y = -6.56355
+	z = -30.0751
+measured nasion coil position relative to head (cm):
+	x = 9.06915
+	y = 6.66134e-16
+	z = 3.55271e-15
+measured left ear coil position relative to head (cm):
+	x = 0.566534
+	y = 7.21808
+	z = 1.06581e-14
+measured right ear coil position relative to head (cm):
+	x = -0.566534
+	y = -7.21808
+	z = -3.55271e-15
+

BIN
Subject 16/sub-16_task-arrow_run-3.ds/sub-16_task-arrow_run-3.infods


+ 1 - 0
Subject 16/sub-16_task-arrow_run-3.ds/sub-16_task-arrow_run-3.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1932480008--0e1e05ac4f099110657a937121671b40

+ 17 - 0
Subject 16/sub-16_task-arrow_run-3.ds/sub-16_task-arrow_run-3.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 16/sub-16_task-arrow_run-3.ds/sub-16_task-arrow_run-3.res4